Variant report

Variant	rs11101399
Chromosome Location	chr10:49807546-49807547
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10491034	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10745280	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10776627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10776628	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11101394	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11101395	0.96[YRI][hapmap];0.99[AFR][1000 genomes]
rs11101396	0.97[YRI][hapmap];0.95[AFR][1000 genomes]
rs11101397	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11817042	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3851553	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4838631	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55755207	0.92[AFR][1000 genomes]
rs56945215	0.92[AFR][1000 genomes]
rs57717969	0.99[AFR][1000 genomes]
rs61072239	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7894023	0.86[YRI][hapmap];0.92[AFR][1000 genomes]
rs7915604	0.99[AFR][1000 genomes]
rs7916314	0.95[AFR][1000 genomes]
rs935283	0.95[ASN][1000 genomes]
rs935284	0.84[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv540623	chr10:49805087-49819765	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv540624	chr10:49805087-49822634	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49794400-49810600	Enhancers	Brain Substantia Nigra	brain
2	chr10:49797400-49812200	Weak transcription	Right Atrium	heart
3	chr10:49798800-49808200	Weak transcription	HMEC	breast
4	chr10:49799400-49808000	Weak transcription	HUVEC	blood vessel
5	chr10:49799400-49808800	Weak transcription	NH-A	brain
6	chr10:49800600-49809400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr10:49800800-49807800	Weak transcription	Ovary	ovary
8	chr10:49803800-49809600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr10:49804000-49807800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr10:49804000-49808400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr10:49804200-49809600	Enhancers	Brain Hippocampus Middle	brain
12	chr10:49804400-49810800	Weak transcription	Gastric	stomach
13	chr10:49804600-49809200	Enhancers	Brain Anterior Caudate	brain
14	chr10:49804800-49807600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:49804800-49808200	Genic enhancers	Muscle Satellite Cultured Cells	--
16	chr10:49804800-49809200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr10:49804800-49809400	Enhancers	Brain Cingulate Gyrus	brain
18	chr10:49805000-49809200	Enhancers	Brain Angular Gyrus	brain
19	chr10:49805600-49811000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr10:49806000-49810000	Enhancers	NHDF-Ad	bronchial
21	chr10:49806200-49808800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr10:49806200-49809400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr10:49806400-49807600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr10:49806600-49808000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr10:49806800-49807800	Enhancers	Rectal Mucosa Donor 31	rectum
26	chr10:49806800-49808000	Bivalent Enhancer	Fetal Muscle Leg	muscle
27	chr10:49807000-49808000	Enhancers	Fetal Muscle Trunk	muscle
28	chr10:49807000-49809000	Genic enhancers	NHLF	lung
29	chr10:49807000-49809800	Weak transcription	HSMMtube	muscle
30	chr10:49807000-49811000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr10:49807200-49809000	Enhancers	Fetal Stomach	stomach
32	chr10:49807400-49807600	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr10:49807400-49808000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr10:49807400-49808800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr10:49807400-49808800	Enhancers	HSMM	muscle
36	chr10:49807400-49809000	Genic enhancers	Osteobl	bone

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